Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A7 F28 I1 R1	172	67.8	2301510	98.9%	2276193	138.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,915,508	(A)_8→9	intergenic (‑308/+45)	glmU ← / ← atpC	fused N‑acetylglucosamine‑1‑phosphate uridyltransferase and glucosamine‑1‑phosphate acetyltransferase/ATP synthase F1 complex subunit epsilon

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,915,500	1	.	A	100.0%	162.5 / NA	46	intergenic (‑300/+53)	glmU/atpC	fused N‑acetylglucosamine‑1‑phosphate uridyltransferase and glucosamine‑1‑phosphate acetyltransferase/ATP synthase F1 complex subunit epsilon
Reads supporting (aligned to +/- strand): ref base . (0/0); new base A (26/20); total (26/20)

ATTAAGGCAGTACCTTAATTTAAGCGTCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGC‑‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTCCGCAGACGCCTGAGCGTAATC  >  NC_000913/3915366‑3915633

aTTAAGGCAGTACCTTAATTTAAGCGTCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGC‑‑aaaaa                                                                                                                                  >  1:150111/1‑140 (MQ=255)

    aGGCAGTACCTTAATTTAAGCGTCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGC‑‑aaaaaaaaa                                                                                                                              >  2:428803/1‑139 (MQ=255)

      gCAGTACCTTAATTTAAGCGTCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGC‑‑aaaaaaaaagc                                                                                                                            <  1:328620/140‑4 (MQ=255)

          tACCTTAATTTAAGCGTCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAagccagc                                                                                                                         >  2:274082/1‑140 (MQ=255)

                aaTTTAAGCGTCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGtt                                                                                                                    <  2:804716/139‑1 (MQ=255)

                aaTTTAAGCGTCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGtt                                                                                                                    >  1:804716/1‑139 (MQ=255)

                      aGCGTCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCAAAAAAAAAAGCCAGCCTGTTTCCAGa                                                                                                              >  2:68824/1‑140 (MQ=255)

                      aGCGTCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGAc                                                                                                             >  1:789511/1‑140 (MQ=255)

                          tCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGc                                                                                                         >  1:45208/1‑140 (MQ=255)

                            aGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCtt                                                                                                       >  1:944136/1‑140 (MQ=255)

                                ggATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTtgt                                                                                                   <  1:428803/140‑1 (MQ=255)

                                      ttttGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTtgtg                                                                                                  <  2:479144/135‑1 (MQ=255)

                                      ttttGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTtgtg                                                                                                  >  1:479144/1‑135 (MQ=255)

                                      ttttGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTtgtg                                                                                                  >  1:198515/1‑135 (MQ=255)

                                      ttttGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTtgtg                                                                                                  <  2:198515/135‑1 (MQ=255)

                                        ttGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCa                                                                                           >  1:975862/1‑140 (MQ=255)

                                           ctctTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGc                                                                                        <  2:45208/140‑1 (MQ=255)

                                           ctctTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGc                                                                                        <  1:216611/140‑1 (MQ=255)

                                                      aTCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACAt                                                                             >  2:386547/1‑140 (MQ=255)

                                                        cAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCg                                                                           <  1:386547/140‑1 (MQ=255)

                                                                  aCAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGt                                                                 <  2:150111/140‑1 (MQ=255)

                                                                  aCAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGt                                                                 <  1:1026494/140‑1 (MQ=255)

                                                                   cAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCAAAAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGt                                                                 <  2:622979/140‑1 (MQ=255)

                                                                   cAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTc                                                                >  1:1136746/1‑140 (MQ=255)

                                                                   cAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTc                                                                >  1:836707/1‑140 (MQ=255)

                                                                     ggAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCaa                                                              >  2:914416/1‑140 (MQ=255)

                                                                     ggAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCaa                                                              >  1:1034463/1‑140 (MQ=255)

                                                                          aCAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGa                                                         <  2:1034463/140‑1 (MQ=255)

                                                                              gggggTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGt                                                                 >  2:1002894/1‑128 (MQ=255)

                                                                              gggggTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGt                                                                 <  1:1002894/128‑1 (MQ=255)

                                                                                gggTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAAcgc                                                   >  2:896290/1‑140 (MQ=255)

                                                                                gggTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGC‑TTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAAcgcg                                                  <  1:222355/140‑1 (MQ=255)

                                                                                  gTTTTATATCAGCAGGTTCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACgcgc                                                 <  2:789511/140‑1 (MQ=255)

                                                                                                 gATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCt                                  <  1:896290/140‑1 (MQ=255)

                                                                                                 gATCTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCt                                  <  2:1136746/140‑1 (MQ=255)

                                                                                                    cTATGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTg                               <  2:836707/140‑1 (MQ=255)

                                                                                                      aTGTGAACGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGATGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGc                             >  1:698719/1‑140 (MQ=255)

                                                                                                             cGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCt                                  >  1:61720/1‑128 (MQ=255)

                                                                                                             cGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCt                                  <  2:61720/128‑1 (MQ=255)

                                                                                                             cGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTcc                      >  2:384502/1‑140 (MQ=255)

                                                                                                             cGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTcc                      >  1:196586/1‑140 (MQ=255)

                                                                                                             cGCTATTCAGGACGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTcc                      >  2:110661/1‑140 (MQ=255)

                                                                                                                         cGGGTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTCCGCAGACGCCTGa          >  2:496452/1‑140 (MQ=255)

                                                                                                                          gggTCACACGCGCAAAAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTCCGCAGACGCCTGa          <  1:68824/140‑1 (MQ=255)

                                                                                                                            gTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTCCGCa                   >  2:1005877/1‑128 (MQ=255)

                                                                                                                            gTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTCCGCa                   <  1:1005877/128‑1 (MQ=255)

                                                                                                                            gTCACACGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTCCGCAGACGCCTGAGCg       >  1:525484/1‑140 (MQ=255)

                                                                                                                                 acGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTCCGCAGACGCCTGAGCGTAATc  >  1:315043/1‑140 (MQ=255)

                                                                                                                                 acGCGCA‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTCCGCAGACGCCTGAGCGTAATc  >  2:1120220/1‑140 (MQ=255)

ATTAAGGCAGTACCTTAATTTAAGCGTCAGGTGGATGTTTTTGCTCTTATTTCGATCAATGAATAAACAGGAAAACAGGGGGGTTTTATATCAGCAGGATCTATGTGAACGCTATTCAGGACGGGTCACACGCGC‑‑AAAAAAAAGCCAGCCTGTTTCCAGACTGGCTTTTGTGCTTTTCAAGCCGGTGTTACATCGCTTTTTTGGTCAACTCGATAACGCGCAGCTGCGCGATCGCTTTGGCCAGTTCCGCAGACGCCTGAGCGTAATC  >  NC_000913/3915366‑3915633

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A